Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0009889

Physical Location & Seq

Genomic Coordinates Reverse (-)

18534912 .. 18538758

Gene Structure 3847 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG204200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGGGGACTGTGATGACGAATTCCGACGGTGCGGTGGTCGGCGGAGGAAGCGACGGCGTTTTGGGGTGTAATCTGAAGCGTGAGAAGCTTATAATCGATACTGACCCTGGTATCGATGACACTATGGCAATCTTAATGGCATTTCAAACTCCGGAGTTGGAAATATTGGGCTTGACAACAATATTCGGTAATGTTACCACTGAAGATGCCACTCGCAATGCCTTGCTTCTCTGTGAGATCGCAGGGCAGCCAGGTGTGCCTGTGGCGGAGGGAAGCCCTGAGCCTCTGAAGGGTGGAAGGCCACGTGTTGCTGACTTTATCCACGGTTCCGATGGATTGGGGAACATATTTATACCTCCTCCAGAAACAAAGAAAATTGAGAAGACTGCTGCTGAATTTCTTGTTGATACAGTGTCTCAATATCCTGATGAAGTATCAATACTTGCCCTTGGCCCCTTGACAAACTTGGCATTGGCAATCAAAAGGGATTCTTCCTTTGCAAGAAAGGTGAAGAGGGTGGTTGTACTTGGCGGTGCTTTCTTTGCACTGGGAAATGTAAATCCTGCTGCTGAAGCAAATATTTATGGAGACCCGGAAGCAGCAGATGTTGTGTTTACATCTGGGGCTAACATTACTGTTGTTGGAATAAATATTACGACCCAACTCAAGTTTACAGATTCTGACCTCCTCCAACTGCGGGAATCAAAAGGAAAACATGCTCAATTCATAAGTGACACTTGTAAATTCTACAGAGATTGGCATGTGAAATCTGATGGTGTTTATGGGATTTTCCTCCATGACCCTGTCAGTTTTGTAGCAGTAGTCCGTCCTGATCTCTTTACATACAAGAAGGGGGTTGTGAGGGTTGAGACTCAGGGCATCTGTGTTGGGCACACACTGATGGATCAAGGACTAAAGAATTGGAATTCAAACAATCCATGGACAGGCTATTCCCCTGTTGAAGTTGCTTGGACAGTGAACGTGGATGAAGTCCTTGATTATATAAGAGATCGACTGATGACATCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006152 GO:0006213 GO:0006218 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008477 GO:0009056 GO:0009116 GO:0009119 GO:0009164 GO:0009987 GO:0016787 GO:0016798 GO:0016799 GO:0019439 GO:0034641 GO:0034655 GO:0034656 GO:0042278 GO:0042454 GO:0044237 GO:0044238 GO:0044248 GO:0044270 GO:0044281 GO:0044282 GO:0044424 GO:0044444 GO:0044464 GO:0045437 GO:0046108 GO:0046131 GO:0046133 GO:0046135 GO:0046483 GO:0046700 GO:0047622 GO:0047724 GO:0050263 GO:0055086 GO:0071704 GO:0072521 GO:0072523 GO:0072527 GO:0072529 GO:0072585 GO:1901135 GO:1901136 GO:1901360 GO:1901361 GO:1901564 GO:1901565 GO:1901575 GO:1901657 GO:1901658

KEGG Pathways

Metabolic & Signaling

ko00240 ko00760 map00240 map00760

Pfam Domains

Protein Families

IU_nuc_hydro

Protein Analysis

342

Amino Acids

36.89

Weight (kDa)

4.91

Isoelectric Point (pI)

26.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IU_nuc_hydro	PF01156	30 - 332	1.9e-92	Inosine-uridine preferring nucleoside hydrolase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0009889)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36310
fragaria_vesca	FvH4_6g18360 FvH4_6g18360 FvH4_6g18360
malus_domestica	MD12G1022900.v1.1 MD14G1019900.v1.1
prunus_persica	Prupe.7G113700_v2.0.a1 Prupe.7G113700_v2.0.a1 Prupe.7G113700_v2.0.a1 Prupe.7G113700_v2.0.a1
pyrus_communis	pycom12g02140 pycom14g01950
rosa_chinensis	RchiOBHm_Chr3g0472851
rosa_laevigata	RLG00000024051
rosa_roxburghii	Rroxscaffold_6G00408560
rosa_rugosa	Rorug03G0128100
rosa_samantha	Rh3AG180800 Rh3BG207000 Rh3CG204200 Rh3DG168900
rosa_wichuraiana	Rw3G016220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	92
AccIII	TCCGGA	1 cut(s)	151
AciI	CCGC	5 cut(s)	32, 42, 266, 531, 697
AclWI	GGATC	1 cut(s)	912
AcsI	RAATTY	4 cut(s)	19, 395, 743, 925
AcuI	CTGAAG	4 cut(s)	95, 222, 308, 591
AcvI	CACGTG	1 cut(s)	305
AfaI	GTAC	1 cut(s)	525
AfiI	CCNNNNNNNGG	3 cut(s)	290, 697, 944
AflIII	ACRYGT	1 cut(s)	304
AgsI	TTSAA	3 cut(s)	146, 930, 962
AjnI	CCWGG	2 cut(s)	106, 250
AluBI	AGCT	1 cut(s)	88
AluI	AGCT	1 cut(s)	88
Alw26I	GTCTC	3 cut(s)	420, 582, 863
AlwI	GGATC	1 cut(s)	912
AlwNI	CAGNNNCTG	1 cut(s)	680
Aor13HI	TCCGGA	1 cut(s)	151
AoxI	GGCC	2 cut(s)	299, 451
ApeKI	GCWGC	4 cut(s)	247, 389, 566, 599
ApoI	RAATTY	4 cut(s)	19, 395, 743, 925
AspS9I	GGNCC	1 cut(s)	452
AsuC2I	CCSGG	1 cut(s)	593
AsuHPI	GGTGA	1 cut(s)	520
BaeGI	GKGCMC	1 cut(s)	894
BaeI	ACNNNNGTAYC	2 cut(s)	94, 127
BarI	GAAGNNNNNNTAC	2 cut(s)	423, 455
BbrPI	CACGTG	1 cut(s)	305
BbsI	GAAGAC	1 cut(s)	389
BbvI	GCAGC	4 cut(s)	259, 376, 553, 611
BccI	CCATC	3 cut(s)	326, 767, 895
BceAI	ACGGC	1 cut(s)	70
BciT130I	CCWGG	2 cut(s)	108, 252
BcnI	CCSGG	1 cut(s)	593
BcoDI	GTCTC	3 cut(s)	420, 582, 863
BfmI	CTRYAG	1 cut(s)	748
BisI	GCNGC	4 cut(s)	248, 390, 567, 600
BlsI	GCNGC	4 cut(s)	249, 391, 568, 601
Bme1390I	CCNGG	3 cut(s)	108, 252, 593
BmgT120I	GGNCC	1 cut(s)	452
BmiI	GGNNCC	2 cut(s)	328, 454
BmrFI	CCNGG	3 cut(s)	108, 252, 593
BmrI	ACTGGG	1 cut(s)	557
BmsI	GCATC	2 cut(s)	196, 888
BmuI	ACTGGG	1 cut(s)	557
BpiI	GAAGAC	1 cut(s)	389
BpmI	CTGGAG	1 cut(s)	345
Bpu10I	CCTNAGC	1 cut(s)	279
BpuEI	CTTGAG	1 cut(s)	650
BpuMI	CCSGG	1 cut(s)	593
Bsa29I	ATCGAT	2 cut(s)	96, 114
BsaAI	YACGTR	1 cut(s)	305
BsaI	GGTCTC	1 cut(s)	582
BsaJI	CCNNGG	4 cut(s)	106, 322, 448, 938
BsaWI	WCCGGW	1 cut(s)	151
Bsc4I	CCNNNNNNNGG	3 cut(s)	290, 697, 944
Bse1I	ACTGG	1 cut(s)	552
Bse3DI	GCAATG	1 cut(s)	223
BseAI	TCCGGA	1 cut(s)	151
BseBI	CCWGG	2 cut(s)	108, 252
BseCI	ATCGAT	2 cut(s)	96, 114
BseDI	CCNNGG	4 cut(s)	106, 322, 448, 938
BseGI	GGATG	1 cut(s)	991
BseLI	CCNNNNNNNGG	3 cut(s)	290, 697, 944
BseMI	GCAATG	1 cut(s)	223
BseMII	CTCAG	2 cut(s)	270, 887
BseNI	ACTGG	1 cut(s)	552
BseRI	GAGGAG	2 cut(s)	348, 677
BseSI	GKGCMC	1 cut(s)	894
BseXI	GCAGC	4 cut(s)	259, 376, 553, 611
BshFI	GGCC	2 cut(s)	301, 453
BshVI	ATCGAT	2 cut(s)	96, 114
BsiSI	CCGG	2 cut(s)	152, 593
BslFI	GGGAC	1 cut(s)	19
BslI	CCNNNNNNNGG	3 cut(s)	290, 697, 944
BsmAI	GTCTC	3 cut(s)	420, 582, 863
BsmFI	GGGAC	1 cut(s)	19
BsnI	GGCC	2 cut(s)	301, 453
Bso31I	GGTCTC	1 cut(s)	582
Bsp1286I	GDGCHC	1 cut(s)	894
Bsp13I	TCCGGA	1 cut(s)	151
Bsp143I	GATC	4 cut(s)	237, 832, 904, 1009
Bsp19I	CCATGG	1 cut(s)	938
BspACI	CCGC	5 cut(s)	32, 42, 266, 531, 697
BspANI	GGCC	2 cut(s)	301, 453
BspCNI	CTCAG	2 cut(s)	271, 886
BspDI	ATCGAT	2 cut(s)	96, 114
BspEI	TCCGGA	1 cut(s)	151
BspLI	GGNNCC	2 cut(s)	328, 454
BspPI	GGATC	1 cut(s)	912
BspTNI	GGTCTC	1 cut(s)	582
BsrDI	GCAATG	1 cut(s)	223
BsrI	ACTGG	1 cut(s)	552
BssECI	CCNNGG	4 cut(s)	106, 322, 448, 938
BssMI	GATC	4 cut(s)	237, 832, 904, 1009
BssT1I	CCWWGG	2 cut(s)	448, 938
Bst2UI	CCWGG	2 cut(s)	108, 252
Bst4CI	ACNGT	6 cut(s)	10, 29, 326, 412, 637, 976
Bst6I	CTCTTC	1 cut(s)	506
BstBAI	YACGTR	1 cut(s)	305
BstDEI	CTNAG	2 cut(s)	279, 873
BstDSI	CCRYGG	2 cut(s)	322, 938
BstF5I	GGATG	1 cut(s)	991
BstKTI	GATC	4 cut(s)	240, 835, 907, 1012
BstMAI	GTCTC	3 cut(s)	420, 582, 863
BstMBI	GATC	4 cut(s)	237, 832, 904, 1009
BstMWI	GCNNNNNNNGC	5 cut(s)	48, 85, 256, 542, 572
BstNI	CCWGG	2 cut(s)	108, 252
BstNSI	RCATGY	2 cut(s)	719, 764
BstSCI	CCNGG	3 cut(s)	106, 250, 591
BstSFI	CTRYAG	1 cut(s)	748
BstSLI	GKGCMC	1 cut(s)	894
BstV1I	GCAGC	4 cut(s)	259, 376, 553, 611
BstV2I	GAAGAC	1 cut(s)	389
Bsu15I	ATCGAT	2 cut(s)	96, 114
BsuRI	GGCC	2 cut(s)	301, 453
BsuTUI	ATCGAT	2 cut(s)	96, 114
BtgI	CCRYGG	2 cut(s)	322, 938
BtsCI	GGATG	1 cut(s)	991
BtsIMutI	CAGTG	5 cut(s)	198, 417, 545, 896, 981
CaiI	CAGNNNCTG	1 cut(s)	680
Cfr13I	GGNCC	1 cut(s)	452
ClaI	ATCGAT	2 cut(s)	96, 114
Csp6I	GTAC	1 cut(s)	524
CviAII	CATG	4 cut(s)	716, 761, 797, 939
CviJI	RGCY	9 cut(s)	88, 171, 250, 276, 283, 301, 453, 626, 948
CviKI_1	RGCY	9 cut(s)	88, 171, 250, 276, 283, 301, 453, 626, 948
CviQI	GTAC	1 cut(s)	524
DdeI	CTNAG	2 cut(s)	279, 873
DpnI	GATC	4 cut(s)	239, 834, 906, 1011
DpnII	GATC	4 cut(s)	237, 832, 904, 1009
Eam1104I	CTCTTC	1 cut(s)	506
EarI	CTCTTC	1 cut(s)	506
EciI	GGCGGA	2 cut(s)	57, 281
Eco130I	CCWWGG	2 cut(s)	448, 938
Eco31I	GGTCTC	1 cut(s)	582
Eco57I	CTGAAG	4 cut(s)	95, 222, 308, 591
Eco72I	CACGTG	1 cut(s)	305
EcoRI	GAATTC	2 cut(s)	19, 925
EcoRII	CCWGG	2 cut(s)	106, 250
EcoT14I	CCWWGG	2 cut(s)	448, 938
ErhI	CCWWGG	2 cut(s)	448, 938
FaeI	CATG	4 cut(s)	719, 764, 800, 942
FalI	AAGNNNNNCTT	4 cut(s)	475, 507, 721, 753
FaqI	GGGAC	1 cut(s)	19
FatI	CATG	4 cut(s)	715, 760, 796, 938
FauI	CCCGC	1 cut(s)	690
Fnu4HI	GCNGC	4 cut(s)	248, 390, 567, 600
FokI	GGATG	1 cut(s)	998
Fsp4HI	GCNGC	4 cut(s)	248, 390, 567, 600
GluI	GCNGC	4 cut(s)	248, 390, 567, 600
GsuI	CTGGAG	1 cut(s)	345
HaeIII	GGCC	2 cut(s)	301, 453
HapII	CCGG	2 cut(s)	152, 593
Hin1II	CATG	4 cut(s)	719, 764, 800, 942
HindIII	AAGCTT	1 cut(s)	86
HinfI	GANTC	4 cut(s)	488, 677, 701, 871
HpaII	CCGG	2 cut(s)	152, 593
HphI	GGTGA	1 cut(s)	520
Hpy166II	GTNNAC	3 cut(s)	615, 672, 979
Hpy188I	TCNGA	6 cut(s)	25, 75, 288, 331, 682, 772
Hpy188III	TCNNGA	5 cut(s)	152, 362, 425, 830, 1026
Hpy8I	GTNNAC	3 cut(s)	615, 672, 979
Hpy99I	CGWCG	2 cut(s)	29, 56
HpyAV	CCTTC	3 cut(s)	283, 291, 844
HpyCH4III	ACNGT	6 cut(s)	10, 29, 326, 412, 637, 976
HpyCH4IV	ACGT	2 cut(s)	304, 981
HpyCH4V	TGCA	2 cut(s)	500, 545
HpyF10VI	GCNNNNNNNGC	5 cut(s)	48, 85, 256, 542, 572
HpyF3I	CTNAG	2 cut(s)	279, 873
HpySE526I	ACGT	2 cut(s)	304, 981
Hsp92II	CATG	4 cut(s)	719, 764, 800, 942
Kpn2I	TCCGGA	1 cut(s)	151
Kzo9I	GATC	4 cut(s)	237, 832, 904, 1009
Lsp1109I	GCAGC	4 cut(s)	259, 376, 553, 611
LweI	GCATC	2 cut(s)	196, 888
MaeII	ACGT	2 cut(s)	304, 981
MaeIII	GTNAC	2 cut(s)	193, 731
MalI	GATC	4 cut(s)	239, 834, 906, 1011
MboI	GATC	4 cut(s)	237, 832, 904, 1009
MboII	GAAGA	4 cut(s)	215, 394, 483, 523
MhlI	GDGCHC	1 cut(s)	894
MluCI	AATT	7 cut(s)	19, 375, 395, 722, 743, 919, 925
MlyI	GAGTC	1 cut(s)	865
MmeI	TCCRAC	4 cut(s)	48, 138, 622, 715
MroI	TCCGGA	1 cut(s)	151
MseI	TTAA	1 cut(s)	134
MslI	CAYNNNNRTG	1 cut(s)	899
MspI	CCGG	2 cut(s)	152, 593
MspR9I	CCNGG	3 cut(s)	108, 252, 593
MvaI	CCWGG	2 cut(s)	108, 252
MwoI	GCNNNNNNNGC	5 cut(s)	48, 85, 256, 542, 572
NciI	CCSGG	1 cut(s)	593
NcoI	CCATGG	1 cut(s)	938
NdeII	GATC	4 cut(s)	237, 832, 904, 1009
NlaIII	CATG	4 cut(s)	719, 764, 800, 942
NlaIV	GGNNCC	2 cut(s)	328, 454
NmuCI	GTSAC	1 cut(s)	731
NspI	RCATGY	2 cut(s)	719, 764
PfeI	GAWTC	3 cut(s)	488, 677, 701
PflFI	GACNNNGTC	1 cut(s)	803
PkrI	GCNGC	4 cut(s)	249, 391, 568, 601
PleI	GAGTC	1 cut(s)	865
PmaCI	CACGTG	1 cut(s)	305
PmlI	CACGTG	1 cut(s)	305
PpsI	GAGTC	1 cut(s)	865
Ppu21I	YACGTR	1 cut(s)	305
PsiI	TTATAA	1 cut(s)	92
Psp6I	CCWGG	2 cut(s)	106, 250
PspCI	CACGTG	1 cut(s)	305
PspGI	CCWGG	2 cut(s)	106, 250
PspN4I	GGNNCC	2 cut(s)	328, 454
PspPI	GGNCC	1 cut(s)	452
PstNI	CAGNNNCTG	1 cut(s)	680
PsyI	GACNNNGTC	1 cut(s)	803
RsaI	GTAC	1 cut(s)	525
RsaNI	GTAC	1 cut(s)	524
RseI	CAYNNNNRTG	1 cut(s)	899
SaqAI	TTAA	1 cut(s)	134
SatI	GCNGC	4 cut(s)	248, 390, 567, 600
Sau3AI	GATC	4 cut(s)	237, 832, 904, 1009
Sau96I	GGNCC	1 cut(s)	452
SchI	GAGTC	1 cut(s)	865
ScrFI	CCNGG	3 cut(s)	108, 252, 593
SduI	GDGCHC	1 cut(s)	894
SetI	ASST	7 cut(s)	90, 256, 307, 358, 510, 687, 984
SfaNI	GCATC	2 cut(s)	196, 888
SfcI	CTRYAG	1 cut(s)	748
SmiMI	CAYNNNNRTG	1 cut(s)	899
SmlI	CTYRAG	1 cut(s)	665
SmoI	CTYRAG	1 cut(s)	665
Sse9I	AATT	7 cut(s)	19, 375, 395, 722, 743, 919, 925
SsiI	CCGC	5 cut(s)	32, 42, 266, 531, 697
SspI	AATATT	4 cut(s)	165, 183, 580, 652
StyD4I	CCNGG	3 cut(s)	106, 250, 591
StyI	CCWWGG	2 cut(s)	448, 938
TaaI	ACNGT	6 cut(s)	10, 29, 326, 412, 637, 976
TaiI	ACGT	2 cut(s)	307, 984
TaqI	TCGA	3 cut(s)	96, 114, 1012
TasI	AATT	7 cut(s)	19, 375, 395, 722, 743, 919, 925
TatI	WGTACW	1 cut(s)	523
TfiI	GAWTC	3 cut(s)	488, 677, 701
Tru1I	TTAA	1 cut(s)	134
Tru9I	TTAA	1 cut(s)	134
TscAI	CASTG	5 cut(s)	205, 417, 552, 903, 981
TseFI	GTSAC	1 cut(s)	731
TseI	GCWGC	4 cut(s)	247, 389, 566, 599
Tsp45I	GTSAC	1 cut(s)	731
TspDTI	ATGAA	3 cut(s)	444, 715, 1002
TspGWI	ACGGA	1 cut(s)	815
TspRI	CASTG	5 cut(s)	205, 417, 552, 903, 981
Tth111I	GACNNNGTC	1 cut(s)	803
XapI	RAATTY	4 cut(s)	19, 395, 743, 925
XceI	RCATGY	2 cut(s)	719, 764
XcmI	CCANNNNNNNNNTGG	1 cut(s)	329

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.